The exit status of the task that caused the workflow execution to fail was: 125.
The full error message was:
Error executing process > 'NFCORE_FETCHNGS:SRA:SRA_FASTQ_FTP (SRX9626017_SRR13191702)'
Caused by:
Process `NFCORE_FETCHNGS:SRA:SRA_FASTQ_FTP (SRX9626017_SRR13191702)` terminated with an error exit status (125)
Command executed:
wget \
-t 5 -nv -c -T 60 \
-O SRX9626017_SRR13191702_1.fastq.gz \
ftp.sra.ebi.ac.uk/vol1/fastq/SRR131/002/SRR13191702/SRR13191702_1.fastq.gz
echo "89c5be920021a035084d8aeb74f32df7 SRX9626017_SRR13191702_1.fastq.gz" > SRX9626017_SRR13191702_1.fastq.gz.md5
md5sum -c SRX9626017_SRR13191702_1.fastq.gz.md5
wget \
-t 5 -nv -c -T 60 \
-O SRX9626017_SRR13191702_2.fastq.gz \
ftp.sra.ebi.ac.uk/vol1/fastq/SRR131/002/SRR13191702/SRR13191702_2.fastq.gz
echo "56271be38a80db78ef3bdfc5d9909b98 SRX9626017_SRR13191702_2.fastq.gz" > SRX9626017_SRR13191702_2.fastq.gz.md5
md5sum -c SRX9626017_SRR13191702_2.fastq.gz.md5
cat <<-END_VERSIONS > versions.yml
"NFCORE_FETCHNGS:SRA:SRA_FASTQ_FTP":
wget: $(echo $(wget --version | head -n 1 | sed 's/^GNU Wget //; s/ .*$//'))
END_VERSIONS
Command exit status:
125
Command output:
(empty)
Command error:
Unable to find image 'quay.io/biocontainers/wget:1.20.1' locally
1.20.1: Pulling from biocontainers/wget
docker: [DEPRECATION NOTICE] Docker Image Format v1 and Docker Image manifest version 2, schema 1 support is disabled by default and will be removed in an upcoming release. Suggest the author of quay.io/biocontainers/wget:1.20.1 to upgrade the image to the OCI Format or Docker Image manifest v2, schema 2. More information at https://docs.docker.com/go/deprecated-image-specs/.
See 'docker run --help'.
Work dir:
/workspace/fetchngs/work/d9/d9fbfbff13acf3576969ba7b0629e2
Tip: you can replicate the issue by changing to the process work dir and entering the command `bash .command.run`
nextflow run nf-core/fetchngs -profile docker --input ids.csv --outdir output
0f0b67958c4853dabf8556e682b6a37937d2f9b2-eb2f-495e-a8fc-cee134bae64ahttps://github.com/nf-core/fetchngs, revision master (commit hash
8ec2d934f9301c818d961b1e4fdf7fc79610bdc5)
These plots give an overview of the distribution of resource usage for each process.
This table shows information about each task in the workflow. Use the search box on the right to filter rows for specific values. Clicking headers will sort the table by that value and scrolling side to side will reveal more columns.